Additional file 8: of Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

Additional file 5: of The relationship between mitochondrial DNA haplotype and the reproductive capacity of domestic pigs (Sus scrofa domesticus)

Te-Sha Tsai (3550196)
Sriram Rajasekar (3550190)
Justin St. John (3550193)

May 2016

Breed distribution across the mtDNA haplotypes for the 216 commercial pigs. (DOCX 42Â kb

Additional file 5: of A genome-wide detection of selection signatures in conserved and commercial pig breeds maintained in Poland

Artur Gurgul (825970)
Igor Jasielczuk (825972)
Katarzyna Ropka-Molik (3908581)
Ewelina Semik-Gurgul (5880599)
Klaudia Pawlina-Tyszko (4814556)
Tomasz Szmatoła (4585621)
Magdalena Szyndler-Nędza (5880602)
Monika Bugno-Poniewierska (3908578)
Tadeusz Blicharski (3440384)
Karolina Szulc (5880605)
Ewa Skrzypczak (5880608)
Jędrzej Krupiński (5880611)

October 2018

REHH P-values for the detected core haplotypes with the highest frequency. (XLSX 730 kb

Additional file 8 of Insights into the architecture of human-induced polygenic selection in Duroc pigs

Zitao Chen (6433136)
Jinyan Teng (5705546)
Shuqi Diao (8666547)
Zhiting Xu (13835347)
Shaopan Ye (4987505)
Dingjie Qiu (13835350)
Zhe Zhang (81603)
Yuchun Pan (102909)
Jiaqi Li (220961)
Qin Zhang (58638)
Zhe Zhang (9711115)

September 2022

Additional file 8: Fig. S8. Regional association plots around rs324534752. (A) GWAS result around rs...

Additional file 7: of Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

C. Reimer (5772014)
C.-J. Rubin (5772017)
A. Sharifi (5772020)
N.-T. Ha (5772023)
S. Weigend (5772026)
K.-H. Waldmann (5772029)
O. Distl (5772032)
S. Pant (5772035)
M. Fredholm (5772038)
M. Schlather (5772041)
H. Simianer (5772044)

September 2018

Table S5. Overview of SNPs in the region from 52 to 61Â Mb on chromosome X, including results of fil...

Additional file 6: of Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

C. Reimer (5772014)
C.-J. Rubin (5772017)
A. Sharifi (5772020)
N.-T. Ha (5772023)
S. Weigend (5772026)
K.-H. Waldmann (5772029)
O. Distl (5772032)
S. Pant (5772035)
M. Fredholm (5772038)
M. Schlather (5772041)
H. Simianer (5772044)

September 2018

Figure S2. Neighbor-joining tree based on all SNPs in the second part of the selective sweep region ...

Additional file 9: of Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

C. Reimer (5772014)
C.-J. Rubin (5772017)
A. Sharifi (5772020)
N.-T. Ha (5772023)
S. Weigend (5772026)
K.-H. Waldmann (5772029)
O. Distl (5772032)
S. Pant (5772035)
M. Fredholm (5772038)
M. Schlather (5772041)
H. Simianer (5772044)

September 2018

Table S7. Genes located in first region of large sweep on chromosome X. (XLSX 9 kb

Additional file 10: of Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

C. Reimer (5772014)
C.-J. Rubin (5772017)
A. Sharifi (5772020)
N.-T. Ha (5772023)
S. Weigend (5772026)
K.-H. Waldmann (5772029)
O. Distl (5772032)
S. Pant (5772035)
M. Fredholm (5772038)
M. Schlather (5772041)
H. Simianer (5772044)

September 2018

Table S8. Overview of sampled breeds and descriptive statistics of the re-sequenced samples. (XLSX 1...

Additional file 1: of Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

C. Reimer (5772014)
C.-J. Rubin (5772017)
A. Sharifi (5772020)
N.-T. Ha (5772023)
S. Weigend (5772026)
K.-H. Waldmann (5772029)
O. Distl (5772032)
S. Pant (5772035)
M. Fredholm (5772038)
M. Schlather (5772041)
H. Simianer (5772044)

September 2018

Figure S1. Multi-Dimensional-Scaling of the distance matrix underlying the phylogenetic tree, based ...

Additional file 3: of Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

C. Reimer (5772014)
C.-J. Rubin (5772017)
A. Sharifi (5772020)
N.-T. Ha (5772023)
S. Weigend (5772026)
K.-H. Waldmann (5772029)
O. Distl (5772032)
S. Pant (5772035)
M. Fredholm (5772038)
M. Schlather (5772041)
H. Simianer (5772044)

September 2018

Table S2. Genome-wide estimated FST values between different contrasts of breed groups for all loci ...

Additional file 1 of A meta-analysis of genetic and phenotypic diversity of European local pig breeds reveals genomic regions associated with breed differentiation for production traits

Klavdija Poklukar (17601689)
Camille Mestre (17601692)
Martin Škrlep (820840)
Marjeta Čandek-Potokar (820843)
Cristina Ovilo (4031207)
Luca Fontanesi (552501)
Juliette Riquet (480830)
Samuele Bovo (4182802)
Giuseppina Schiavo (766650)
Anisa Ribani (3805357)
Maria Muñoz (9035162)
Maurizio Gallo (5156600)
Ricardo Bozzi (17601695)
Rui Charneca (5289781)
Raquel Quintanilla (168993)
Goran Kušec (5444087)
Marie-José Mercat (211636)
Christoph Zimmer (3095667)
Violeta Razmaite (5296219)
Jose P. Araujo (5993315)
Čedomir Radović (5296210)
Radomir Savić (5993318)
Danijel Karolyi (5289622)
Bertrand Servin (17601698)

December 2023

Additional file 1: Table S1. Summary of sequencing statistics (adapted from Bovo et al.[8]). The tab...

Additional file 1 of Associations of genome-wide structural variations with phenotypic differences in cross-bred Eurasian pigs

Wencheng Zong (8025542)
Jinbu Wang (2359150)
Runze Zhao (3401315)
Naiqi Niu (17112914)
Yanfang Su (706280)
Ziping Hu (17112917)
Xin Liu (43569)
Xinhua Hou (108350)
Ligang Wang (347845)
Lixian Wang (465239)
Longchao Zhang (10736706)

October 2023

Additional file 1: Table S1. Sample information. Table S2. TE reference sequence. Table S3. Primers ...

Additional file 1: of A genome wide association study for the number of animals born dead in domestic pigs

Pingxian Wu (5074019)
Kai Wang (21246)
Jie Zhou (28945)
Qiang Yang (135832)
Xidi Yang (6183518)
Anan Jiang (3988364)
Yanzhi Jiang (785400)
Mingzhou Li (112100)
Li Zhu (67404)
Lin Bai (338207)
Xuewei Li (112102)
Guoqing Tang (785399)

January 2019

Table S1. Summary of significant chromosome regions including genomic level (0.05/N) for NM in Landr...

Additional file 4: of A genome-wide detection of selection signatures in conserved and commercial pig breeds maintained in Poland

Artur Gurgul (825970)
Igor Jasielczuk (825972)
Katarzyna Ropka-Molik (3908581)
Ewelina Semik-Gurgul (5880599)
Klaudia Pawlina-Tyszko (4814556)
Tomasz Szmatoła (4585621)
Magdalena Szyndler-Nędza (5880602)
Monika Bugno-Poniewierska (3908578)
Tadeusz Blicharski (3440384)
Karolina Szulc (5880605)
Ewa Skrzypczak (5880608)
Jędrzej Krupiński (5880611)

October 2018

Summary characteristics of core regions (CR) or core haplotypes (CH) in the studied pig breeds. (XLS...

Additional file 1: of Polymorphism of mitochondrial tRNA genes associated with the number of pigs born alive

Dan Wang (34472)
Chao Ning (1781215)
Hai Xiang (3913597)
Xianrui Zheng (140535)
Minghua Kong (6007763)
Tao Yin (401660)
Jianfeng Liu (122580)
Xingbo Zhao (3913603)

November 2018

Table S1. Detail information of used pigs. Table S2. PCR primers used for amplification of pig mitog...

Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

C. Reimer
C.-J. Rubin
A. R. Sharifi
N.-T. Ha
S. Weigend
K.-H. Waldmann
O. Distl
S. D. Pant
M. Fredholm
M. Schlather
H. Simianer

September 2018

Abstract Background Domestication has led to substantial phenotypic and genetic variation in domesti...

Additional file 5: of The relationship between mitochondrial DNA haplotype and the reproductive capacity of domestic pigs (Sus scrofa domesticus)

Te-Sha Tsai (3550196)
Sriram Rajasekar (3550190)
Justin St. John (3550193)

May 2016

Breed distribution across the mtDNA haplotypes for the 216 commercial pigs. (DOCX 42Â kb

Additional file 5: of A genome-wide detection of selection signatures in conserved and commercial pig breeds maintained in Poland

Artur Gurgul (825970)
Igor Jasielczuk (825972)
Katarzyna Ropka-Molik (3908581)
Ewelina Semik-Gurgul (5880599)
Klaudia Pawlina-Tyszko (4814556)
Tomasz Szmatoła (4585621)
Magdalena Szyndler-Nędza (5880602)
Monika Bugno-Poniewierska (3908578)
Tadeusz Blicharski (3440384)
Karolina Szulc (5880605)
Ewa Skrzypczak (5880608)
Jędrzej Krupiński (5880611)

October 2018

REHH P-values for the detected core haplotypes with the highest frequency. (XLSX 730 kb

Additional file 8 of Insights into the architecture of human-induced polygenic selection in Duroc pigs

Zitao Chen (6433136)
Jinyan Teng (5705546)
Shuqi Diao (8666547)
Zhiting Xu (13835347)
Shaopan Ye (4987505)
Dingjie Qiu (13835350)
Zhe Zhang (81603)
Yuchun Pan (102909)
Jiaqi Li (220961)
Qin Zhang (58638)
Zhe Zhang (9711115)

September 2022

Additional file 8: Fig. S8. Regional association plots around rs324534752. (A) GWAS result around rs...

Additional file 7: of Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

C. Reimer (5772014)
C.-J. Rubin (5772017)
A. Sharifi (5772020)
N.-T. Ha (5772023)
S. Weigend (5772026)
K.-H. Waldmann (5772029)
O. Distl (5772032)
S. Pant (5772035)
M. Fredholm (5772038)
M. Schlather (5772041)
H. Simianer (5772044)

September 2018

Table S5. Overview of SNPs in the region from 52 to 61Â Mb on chromosome X, including results of fil...

Additional file 6: of Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

C. Reimer (5772014)
C.-J. Rubin (5772017)
A. Sharifi (5772020)
N.-T. Ha (5772023)
S. Weigend (5772026)
K.-H. Waldmann (5772029)
O. Distl (5772032)
S. Pant (5772035)
M. Fredholm (5772038)
M. Schlather (5772041)
H. Simianer (5772044)

September 2018

Figure S2. Neighbor-joining tree based on all SNPs in the second part of the selective sweep region ...

Additional file 9: of Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

C. Reimer (5772014)
C.-J. Rubin (5772017)
A. Sharifi (5772020)
N.-T. Ha (5772023)
S. Weigend (5772026)
K.-H. Waldmann (5772029)
O. Distl (5772032)
S. Pant (5772035)
M. Fredholm (5772038)
M. Schlather (5772041)
H. Simianer (5772044)

September 2018

Table S7. Genes located in first region of large sweep on chromosome X. (XLSX 9 kb

Additional file 10: of Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

C. Reimer (5772014)
C.-J. Rubin (5772017)
A. Sharifi (5772020)
N.-T. Ha (5772023)
S. Weigend (5772026)
K.-H. Waldmann (5772029)
O. Distl (5772032)
S. Pant (5772035)
M. Fredholm (5772038)
M. Schlather (5772041)
H. Simianer (5772044)

September 2018

Table S8. Overview of sampled breeds and descriptive statistics of the re-sequenced samples. (XLSX 1...

Additional file 1: of Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

C. Reimer (5772014)
C.-J. Rubin (5772017)
A. Sharifi (5772020)
N.-T. Ha (5772023)
S. Weigend (5772026)
K.-H. Waldmann (5772029)
O. Distl (5772032)
S. Pant (5772035)
M. Fredholm (5772038)
M. Schlather (5772041)
H. Simianer (5772044)

September 2018

Figure S1. Multi-Dimensional-Scaling of the distance matrix underlying the phylogenetic tree, based ...

Additional file 3: of Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

C. Reimer (5772014)
C.-J. Rubin (5772017)
A. Sharifi (5772020)
N.-T. Ha (5772023)
S. Weigend (5772026)
K.-H. Waldmann (5772029)
O. Distl (5772032)
S. Pant (5772035)
M. Fredholm (5772038)
M. Schlather (5772041)
H. Simianer (5772044)

September 2018

Table S2. Genome-wide estimated FST values between different contrasts of breed groups for all loci ...

Additional file 1 of A meta-analysis of genetic and phenotypic diversity of European local pig breeds reveals genomic regions associated with breed differentiation for production traits

Klavdija Poklukar (17601689)
Camille Mestre (17601692)
Martin Škrlep (820840)
Marjeta Čandek-Potokar (820843)
Cristina Ovilo (4031207)
Luca Fontanesi (552501)
Juliette Riquet (480830)
Samuele Bovo (4182802)
Giuseppina Schiavo (766650)
Anisa Ribani (3805357)
Maria Muñoz (9035162)
Maurizio Gallo (5156600)
Ricardo Bozzi (17601695)
Rui Charneca (5289781)
Raquel Quintanilla (168993)
Goran Kušec (5444087)
Marie-José Mercat (211636)
Christoph Zimmer (3095667)
Violeta Razmaite (5296219)
Jose P. Araujo (5993315)
Čedomir Radović (5296210)
Radomir Savić (5993318)
Danijel Karolyi (5289622)
Bertrand Servin (17601698)

December 2023

Additional file 1: Table S1. Summary of sequencing statistics (adapted from Bovo et al.[8]). The tab...

Additional file 1 of Associations of genome-wide structural variations with phenotypic differences in cross-bred Eurasian pigs

Wencheng Zong (8025542)
Jinbu Wang (2359150)
Runze Zhao (3401315)
Naiqi Niu (17112914)
Yanfang Su (706280)
Ziping Hu (17112917)
Xin Liu (43569)
Xinhua Hou (108350)
Ligang Wang (347845)
Lixian Wang (465239)
Longchao Zhang (10736706)

October 2023

Additional file 1: Table S1. Sample information. Table S2. TE reference sequence. Table S3. Primers ...

Additional file 1: of A genome wide association study for the number of animals born dead in domestic pigs

Pingxian Wu (5074019)
Kai Wang (21246)
Jie Zhou (28945)
Qiang Yang (135832)
Xidi Yang (6183518)
Anan Jiang (3988364)
Yanzhi Jiang (785400)
Mingzhou Li (112100)
Li Zhu (67404)
Lin Bai (338207)
Xuewei Li (112102)
Guoqing Tang (785399)

January 2019

Table S1. Summary of significant chromosome regions including genomic level (0.05/N) for NM in Landr...

Additional file 4: of A genome-wide detection of selection signatures in conserved and commercial pig breeds maintained in Poland

Artur Gurgul (825970)
Igor Jasielczuk (825972)
Katarzyna Ropka-Molik (3908581)
Ewelina Semik-Gurgul (5880599)
Klaudia Pawlina-Tyszko (4814556)
Tomasz Szmatoła (4585621)
Magdalena Szyndler-Nędza (5880602)
Monika Bugno-Poniewierska (3908578)
Tadeusz Blicharski (3440384)
Karolina Szulc (5880605)
Ewa Skrzypczak (5880608)
Jędrzej Krupiński (5880611)

October 2018

Summary characteristics of core regions (CR) or core haplotypes (CH) in the studied pig breeds. (XLS...

Additional file 1: of Polymorphism of mitochondrial tRNA genes associated with the number of pigs born alive

Dan Wang (34472)
Chao Ning (1781215)
Hai Xiang (3913597)
Xianrui Zheng (140535)
Minghua Kong (6007763)
Tao Yin (401660)
Jianfeng Liu (122580)
Xingbo Zhao (3913603)

November 2018

Table S1. Detail information of used pigs. Table S2. PCR primers used for amplification of pig mitog...

Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

C. Reimer
C.-J. Rubin
A. R. Sharifi
N.-T. Ha
S. Weigend
K.-H. Waldmann
O. Distl
S. D. Pant
M. Fredholm
M. Schlather
H. Simianer

September 2018

Abstract Background Domestication has led to substantial phenotypic and genetic variation in domesti...

Additional file 5: of The relationship between mitochondrial DNA haplotype and the reproductive capacity of domestic pigs (Sus scrofa domesticus)

Te-Sha Tsai (3550196)
Sriram Rajasekar (3550190)
Justin St. John (3550193)

May 2016

Breed distribution across the mtDNA haplotypes for the 216 commercial pigs. (DOCX 42Â kb

Additional file 5: of A genome-wide detection of selection signatures in conserved and commercial pig breeds maintained in Poland

Artur Gurgul (825970)
Igor Jasielczuk (825972)
Katarzyna Ropka-Molik (3908581)
Ewelina Semik-Gurgul (5880599)
Klaudia Pawlina-Tyszko (4814556)
Tomasz Szmatoła (4585621)
Magdalena Szyndler-Nędza (5880602)
Monika Bugno-Poniewierska (3908578)
Tadeusz Blicharski (3440384)
Karolina Szulc (5880605)
Ewa Skrzypczak (5880608)
Jędrzej Krupiński (5880611)

October 2018

REHH P-values for the detected core haplotypes with the highest frequency. (XLSX 730 kb

Additional file 8 of Insights into the architecture of human-induced polygenic selection in Duroc pigs

Zitao Chen (6433136)
Jinyan Teng (5705546)
Shuqi Diao (8666547)
Zhiting Xu (13835347)
Shaopan Ye (4987505)
Dingjie Qiu (13835350)
Zhe Zhang (81603)
Yuchun Pan (102909)
Jiaqi Li (220961)
Qin Zhang (58638)
Zhe Zhang (9711115)

September 2022

Additional file 8: Fig. S8. Regional association plots around rs324534752. (A) GWAS result around rs...

Additional file 8: of Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

Abstract

Extracted data

Additional file 8: of Analysis of porcine body size variation using re-sequencing data of miniature and large pigs

Abstract

Extracted data

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